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CFSAN033933_01.0

Organism name:
Salmonella enterica subsp. enterica serovar Typhimurium (enterobacteria)
Taxonomy check:
OK
Infraspecific name:
Strain: CFSAN033933
BioSample:
SAMN03941165
BioProject:
PRJNA186035
Submitter:
Center for Food Safety and Applied Nutrition
Date:
2016/03/11
Assembly type:
na
Assembly level:
Contig
Genome representation:
full
GenBank assembly accession:
GCA_001587845.1 (latest)
RefSeq assembly accession:
GCF_001587845.1 (latest)
RefSeq assembly and GenBank assembly identical:
yes
WGS Project:
LUHV01
Assembly method:
SPAdes v. 3.0.0
Genome coverage:
117x
Sequencing technology:
Illumina NextSeq

IDs: 664411 [UID] 2954028 [GenBank] 3036748 [RefSeq]

See Genome Information for Salmonella enterica

There are 526296 assemblies for this organism

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History (Show revision history)

Comment

Bacterial culture available from Dwayne Roberson, FDA College Park Campus, 5100 Paint Branch Parkway, College Park, MD 20740.
Annotation was added by the NCBI Prokaryotic Genome Annotation Pipeline (released 2013). Information about the Pipeline can be found here: http://www.ncbi.nlm.nih.gov/genome/annotation_prok/

Genome-Annotation-Data

##Genome-Annotation-Data-START##
Annotation Date::09/17/2015 16:32:19
Annotation Method::Best-placed reference protein set; GeneMarkS+
Annotation Pipeline::NCBI Prokaryotic Genome Annotation Pipeline
Annotation Provider::NCBI
Features Annotated::Gene; CDS; rRNA; tRNA; ncRNA; repeat_region
Annotation Software revision::2.10
Genes::4,699
CDS::4,592
Pseudo Genes::41
rRNAs::1, 1, 4 (5S, 16S, 23S)
complete rRNAs::1, 1 (5S, 16S)
partial rRNAs::4 (23S)
tRNAs::52
ncRNA::8
Frameshifted Genes::20
##Genome-Annotation-Data-END##

Global statistics

Total sequence length4,814,064
Total ungapped length4,814,064
Number of contigs187
Contig N5053,337
Contig L5027
Total number of chromosomes and plasmids0
Number of component sequences (WGS or clone)187

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Global assembly definition

Download the full sequence report
Click on the table row to see sequence details in the table to the right
Assembly Unit Name
Primary Assembly
The primary assembly unit does not have any assembled chromosomes or linkage groups.
Please download the full sequence report for information on the scaffolds.

Assembly statistics

MoleculeTotal
Length
Contig
Count
Ungapped
Length
Contig
N50
Spanned
Gaps
Unspanned
Gaps
unplaced4,814,0641874,814,06453,33700

Assembly QA

Taxonomy Check Data

Declared organism

Organism nameSpecies name
Salmonella enterica subsp. enterica serovar TyphimuriumSalmonella enterica

Best-matching type-strain assembly for declared species

AssemblyOrganism nameType category
GCA_000006945.2Salmonella enterica subsp. enterica serovar Typhimurium str. LT2type

Best-matching type-strain assembly

AssemblySpecies nameType category
GCA_000006945.2Salmonella entericatype

Average Nucleotide Identity (ANI) data

ANIQuery coverageSubject coverage
Declared type99.9696.2393.57
Best-match type99.9696.2393.57

ANI result

Taxonomy check statusBest match statusComment
OKderived-species-matchna